TEMPLATE: Parallelize pipeline GHA tests over docker/conda/singularity #3214
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continue from #3149 |
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@nf-core-bot fix linting pretty please 🙏 |
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we also need singularity and conda setup as well |
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In usage already in nf-core/bamtofastq#96 |
| - name: Set up Conda | ||
| if: matrix.profile == 'conda' | ||
| run: | | ||
| nextflow run ${GITHUB_WORKSPACE} -profile test,singularity --outdir ./results | ||
| if: "{% raw %}${{ github.base_ref == 'master' }}{% endraw %}" | ||
| conda clean -a | ||
| conda install -n base conda-libmamba-solver | ||
| conda config --set solver libmamba | ||
| echo $(realpath $CONDA)/condabin >> $GITHUB_PATH | ||
| echo $(realpath python) >> $GITHUB_PATH |
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I just copy pasted from modules
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so which part should I remove there?
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Co-authored-by: Matthias Hörtenhuber <mashehu@users.noreply.github.com>
Co-authored-by: Matthias Hörtenhuber <mashehu@users.noreply.github.com>
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Linting is failing because of the location of some of the |
maxulysse
changed the title
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What's the code for the CHANGELOG? |
Co-authored-by: Matthias Hörtenhuber <mashehu@users.noreply.github.com>
PR checklist
CHANGELOG.mdis updateddocsis updated